RSAT - peak-motifs result

Analysis: gg (07/11/2025 15:50)

peak-motifs  -v 1 -title gg -i $RSAT/public_html/tmp/www-data/2025/11/07/peak-motifs.2025-11-07.155005_2025-11-07.155005_SQOQZS/peak-motifspeak_seq -max_seq_len 1000 -markov auto -disco oligos,positions -nmotifs 5 -minol 6 -maxol 8 -merge_lengths -2str -origin center -motif_db JASPAR2024_CORE_plants_non-redundant tf $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_plants_non-redundant_pfms_transfac.txt -scan_markov 1 -task purge,seqlen,composition,disco,merge_motifs,split_motifs,motifs_vs_motifs,timelog,archive,synthesis,small_summary,motifs_vs_db,scan -prefix peak-motifs -noov -img_format png -outdir $RSAT/public_html/tmp/www-data/2025/11/07/peak-motifs.2025-11-07.155005_2025-11-07.155005_SQOQZS

motif discovery
positions_6-8nt	Not a single significant pattern	[positions_6-8nt]
oligos_6-8nt	oligos_6-8nt_m1 assembly: aaacaaaacc (sig=4.56; e-value=2.8e-05) RC: ggttttgttt oligos_6-8nt_m2 assembly: gaagaaga (sig=2.51; e-value=0.0031) RC: tcttcttc oligos_6-8nt_m3 assembly: tatatgcatg (sig=1.99; e-value=0.01) RC: catgcatata oligos_6-8nt_m4 assembly: aagaaaa (sig=1.30; e-value=0.05) RC: ttttctt oligos_6-8nt_m5 assembly: ctgctgc (sig=0.94; e-value=0.11) RC: gcagcag	[ discovered words: text ] [ assembly: text sig matrices ] [ matrices: tab format transfac format ]

Motif discovery
Motif 1   oligos_6-8nt_m1	k-mer sig=4.56; evalue=2.8e-05 gcwaaCaAaACcar YTGGTTTTGTTWGC	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_plants_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor gcwaaCaAaACcar AT1G76870 MA1367.2 D 8 0.5714 0.837 0.478 NA NA JKD MA1156.2 R 10 0.6250 0.757 0.473 NA NA SGR5 MA1159.2 D 10 0.5882 0.797 0.469 NA NA Total matches= 10 (7 more)		[ match table: html text ] [ alignments (logos): html text ]
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 18 (36.73%) Max nb of predicted sites per peak: 3  (UGT72E2) Mean nb of predicted sites per peak: 1.39	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 2   oligos_6-8nt_m2	k-mer sig=2.51; evalue=0.0031 rwGAaGAaGavg CBTCTTCTTCWY	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_plants_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor rwGAaGAaGavg Zm00001d027846 MA1823.2 D 8 0.6667 0.713 0.476 NA NA NTL8 MA1678.3 D 7 0.5385 0.866 0.466 NA NA NAC005 MA1783.1 R 12 0.6316 0.709 0.448 NA NA Total matches= 5 (2 more)		[ match table: html text ] [ alignments (logos): html text ]
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 19 (38.78%) Max nb of predicted sites per peak: 3  (PER37) Mean nb of predicted sites per peak: 1.68	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 3   oligos_6-8nt_m3	k-mer sig=1.99; evalue=0.01 trtataTGCatGka TMCATGCATATAYA	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_plants_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor trtataTGCatGka GLYMA-08G357600 MA1810.2 D 9 0.6429 0.829 0.533 NA NA FUS3 MA0565.3 R 7 0.5000 0.892 0.446 NA NA AHL13 MA2374.1 R 7 0.4667 0.880 0.410 NA NA Total matches= 3		[ match table: html text ] [ alignments (logos): html text ]
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 21 (42.86%) Max nb of predicted sites per peak: 4  (GLP9) Mean nb of predicted sites per peak: 1.67	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 4   oligos_6-8nt_m4	k-mer sig=1.30; evalue=0.05 bvAAGAAAAsv BSTTTTCTTBV	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_plants_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor bvAAGAAAAsv Zm00001d027846 MA1823.2 D 8 0.7273 0.957 0.696 NA NA KAN2 MA1383.2 R 10 0.9091 0.719 0.654 NA NA ARF16 MA1688.2 D 10 0.9091 0.705 0.641 NA NA Total matches= 23 (20 more)		[ match table: html text ] [ alignments (logos): html text ]
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 27 (55.10%) Max nb of predicted sites per peak: 2  (WRKY31) Mean nb of predicted sites per peak: 1.44	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 5   oligos_6-8nt_m5	k-mer sig=0.94; evalue=0.11 bkCTGCTGCtk MAGCAGCAGMV	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_plants_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor bkCTGCTGCtk GRF4 MA1815.2 R 8 0.7273 0.926 0.674 NA NA Total matches= 1		[ match table: html text ] [ alignments (logos): html text ]
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 12 (24.49%) Max nb of predicted sites per peak: 2  (SAL4) Mean nb of predicted sites per peak: 1.33	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]

Command:  peak-motifs  -v 1 -title gg -i $RSAT/public_html/tmp/www-data/2025/11/07/peak-motifs.2025-11-07.155005_2025-11-07.155005_SQOQZS/peak-motifspeak_seq -max_seq_len 1000 -markov auto -disco oligos,positions -nmotifs 5 -minol 6 -maxol 8 -merge_lengths -2str -origin center -motif_db JASPAR2024_CORE_plants_non-redundant tf $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_plants_non-redundant_pfms_transfac.txt -scan_markov 1 -task purge,seqlen,composition,disco,merge_motifs,split_motifs,motifs_vs_motifs,timelog,archive,synthesis,small_summary,motifs_vs_db,scan -prefix peak-motifs -noov -img_format png -outdir $RSAT/public_html/tmp/www-data/2025/11/07/peak-motifs.2025-11-07.155005_2025-11-07.155005_SQOQZS

Warning: Not a single pattern was found in file tmp/www-data/2025/11/07/peak-motifs.2025-11-07.155005_2025-11-07.155005_SQOQZS/results/positions_6-8nt/peak-motifs_positions-2str-noov_6-8nt_ci50.tab